Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1650
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61127
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
Found at i:83 original size:28 final size:28
Alignment explanation
Indices: 52--155 Score: 163
Period size: 28 Copynumber: 3.7 Consensus size: 28
42 GATTCTTTAG
**
52 TCCACAACTTTGTGGCACCCTTTTAAAA
1 TCCACAACTCCGTGGCACCCTTTTAAAA
80 TCCACAACTCCGTGGCACCCTTTTAAAA
1 TCCACAACTCCGTGGCACCCTTTTAAAA
* *
108 TCCACAACTCCGTGGTACTCTTTTAAAA
1 TCCACAACTCCGTGGCACCCTTTTAAAA
*
136 TCCACAACTCTGTGGCACCC
1 TCCACAACTCCGTGGCACCC
156 ATTTCAAAGC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 69 1.00
ACGTcount: A:0.27, C:0.34, G:0.12, T:0.28
Consensus pattern (28 bp):
TCCACAACTCCGTGGCACCCTTTTAAAA
Found at i:305 original size:28 final size:28
Alignment explanation
Indices: 63--2954 Score: 3519
Period size: 28 Copynumber: 100.8 Consensus size: 28
53 CCACAACTTT
* ** * *
63 GTGGCACCCTTTTAAAATCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* ** * *
91 GTGGCACCCTTTTAAAATCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * ** * *
119 GTGGTACTCTTTTAAAATCCACAACTCT
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
147 GTGGCACCCATTTCAAAGCCCACACAAGTCG
1 GTGGCACCC-TTTCAAAG-CC-CACAAGTCA
*
178 GTGGCAACCCATTTCAAAACCCACACAAGTC-
1 GTGGC-ACCC-TTTC-AAAGCC-CACAAGTCA
*
209 GATGGCAACCCATTTCAAAGCCCACACAAGTCG
1 G-TGGC-ACCC-TTTCAAAG-CC-CACAAGTCA
* *
242 GTGGCAACACTTTTCAAAGCCCACACAAGTCG
1 GTGGC-AC-CCTTTCAAAG-CC-CACAAGTCA
*
274 GTGGCACTCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
302 GTGGCACCCCTTTCAAAGCCTACGCAAGTTA
1 GTGGCA-CCCTTTCAAAGCC--CACAAGTCA
* *
333 GTGGCACCCTTTTAAAGCCCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
361 GTGGCACTCTTTTCAAAGCCCACAAGTCA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCA
390 GTGGCACCCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
418 GTGGCACCTTTTTCAAAGCCCACGCAAGTCA
1 GTGGCACC-CTTTCAAAGCCCA--CAAGTCA
*
449 GTGGCACCCTTTCGAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * *
477 GTGGCACCATTGCGAAGCCCACAATTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
505 GTGGCACTCTTTCAAAACCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
533 GTGGCACCCTTTTAGAGCCCACATAAGTCA
1 GTGGCACCCTTTCAAAGCCCAC--AAGTCA
*
563 GTGGCACTCCTTTCAAAGCCCACAAGTTA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCA
*
592 GTGGCAATCCTTTCAAAGCCCACAAGTCA
1 GTGGC-ACCCTTTCAAAGCCCACAAGTCA
* *
621 GTGGCACTCTTTTCAAAGCCCACAAGTCG
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCA
*
650 GTGGCACTCTTTTCAAAGCCCACAAGTCA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCA
* * *
679 GTGGCACCTTTTCAAAGTCCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
707 GTGGCACCCTTTCAGAGCCAACAACTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
735 GTGGCACCCTTTCGAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * *
763 GTGGCACCATTGCGAAGCCCACAATTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
791 GTGGCACTCTTTCAAAGCCCAAAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
819 GTGGCACCCTTTTAAAGCCCACACAAGTTA
1 GTGGCACCCTTTCAAAG-CC-CACAAGTCA
*
849 GTGGCACTCCTTTCAAAGCCTACAAGTCA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCA
*
878 GTGGCAATCCTTTCAAAGCCCACAAGTCA
1 GTGGC-ACCCTTTCAAAGCCCACAAGTCA
*
907 GTGGCACTCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
935 GTGGCACCCTTTC-AAGCCCACGAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * *
962 ATGGTACCTTTTCAAAGCCCACGAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
990 GTGGCA-CCTTTCAAAGCCCACGAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
1017 GTGGCA-CCTTTCAAAGCCCACAAATCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
1044 GTGGCACTCTTTTCAAAGCCCACAAGTCA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCA
*
1073 GTGACACCCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
1101 GTGGCACCCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
1129 GTGGCACTCCTTTCAAAGCCCACAAGTCA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCA
*
1158 GTGGCACTCCTTTCAAAGCCCACTAGTCA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCA
* *
1187 GTGGCACTCTTTTCAAAGCCCACAAATCA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCA
* *
1216 GTGGCACTCTTTTCAAAGCCCACAAGTTA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCA
1245 GTGGCACCCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
1273 GTGGCACCCTTTCAGAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
1301 GTGGCACCCTTTCGAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * *
1329 GTGGCACCATTGCGAAGCCCACAATTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
1357 GTGGCACTCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
1385 GTGGCACCCTTTTAAAGCCCACACAAGTCA
1 GTGGCACCCTTTCAAAG-CC-CACAAGTCA
1415 GTGGCACTCCTTTCAAAGCCCACAAGTCA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCA
* *
1444 GTGGCATTCCTTTCAAAGCTCACAAGTCA
1 GTGGCA-CCCTTTCAAAGCCCACAAGTCA
* * *
1473 GTGGCACTCTTTTCAAAGGCCACAAATCA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCA
1502 GTGGCACCCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
1530 GTGGCACCCTTTCAAAGCCCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
1558 GTGGCACCCTTTCAGAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
1586 GTGGCACCCTTTCGAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * *
1614 GTGGCACCATTGCGAAGCCCACAATTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
1642 GTGGCACTCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
1670 GTGGCACCCTTTTAAAGCCCACACAAGTTA
1 GTGGCACCCTTTCAAAG-CC-CACAAGTCA
* *
1700 GTGGCACCCTTTTAAAGCCCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
1728 GTGGCACCCTTTCAGAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
1756 GTGGCACCCTTTCGAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * *
1784 GTGGCACCATTGCGAAGCCCATAATTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
1812 GTGGCACTCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
1840 GTGGCACCCTTTTAAAGCCCACACAAGTCA
1 GTGGCACCCTTTCAAAG-CC-CACAAGTCA
1870 GTGGCACTCCTTTCAAAGCCCACAAGTCA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCA
* *
1899 GTGGCATTCCTTTCAAAGCTCACAAGTCA
1 GTGGCA-CCCTTTCAAAGCCCACAAGTCA
* *
1928 GTGGCACTCTTTTCAAAGCCCACAAATCA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCA
1957 GTGGCACCCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
1985 GTGGCACCCTTTCAAAGCCCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
2013 GTGGCACCCTTTCGAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
2041 GTGGCACCCTTTCGAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * *
2069 GTGGCACCATTGCGAAGCCCACAATTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
2097 GTGGCACTCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
2125 GTGGCACCCTTTTAAAGCCCACACAAGTTA
1 GTGGCACCCTTTCAAAG-CC-CACAAGTCA
* *
2155 GTGGCACTCCTTTTAAAGCTCACGCAAGTCA
1 GTGGCAC-CCTTTCAAAGC-C-CACAAGTCA
* * **
2186 GTGGTACCTTTTCAAAGCCCATGAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
2214 GTGGCACTCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
2242 GTGGCATCCTTTCAAAGCCCACGAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
2270 GTGGCACCCTTTCAAAGCCCACACAAGTCA
1 GTGGCACCCTTTCAAAG-CC-CACAAGTCA
2300 GTGGCACTCCTTTCAAAGCCCACGCAAGTCA
1 GTGGCAC-CCTTTCAAAGCCCA--CAAGTCA
*
2331 GTGGCACCTTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
2359 GTGGCACCCTTTCAAAGCCCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
2387 GTGGCACCCTTTCAGAGCCCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
2415 GTGGCACCCTTTCGAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * *
2443 GTGGCACCATTGCGAAGCCCACAATTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
2471 ATGGCACTCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
2499 GTGGCACCCTTTTAAAGCCCACACAAGTTA
1 GTGGCACCCTTTCAAAG-CC-CACAAGTCA
* *
2529 GTGGCACTCCTTTTAAAGCTCACGCAAGTCA
1 GTGGCAC-CCTTTCAAAGC-C-CACAAGTCA
* * * *
2560 GTGGTACCTTTTTAAAGCCCACGAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
2588 GTGGCACTCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
2616 GTGGCATCCTTTCAAAGCCCACGAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
2644 GTGGCACCCTTTCAAAGTCCACACAAGTCA
1 GTGGCACCCTTTCAAAG-CC-CACAAGTCA
2674 GTGGCACTCCTTTCAAAGCCCACGCAAGTCA
1 GTGGCAC-CCTTTCAAAGCCCA--CAAGTCA
* *
2705 GTGGCACCTTTTCAAAGCCCACGAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
**
2733 GTGGCACTTTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
2761 GTGGCACCCTTTC-AAGCCCACGAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
2788 GTGGTACCTTTTCAAAGCCCACGAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
2816 GTGGCA-CCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
2843 GTGGCACTCTTTCAAAGCCCACGAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
2871 GTGGCATCCTTTCAAAGCCCACGCAAGTCA
1 GTGGCACCCTTTCAAAGCCCA--CAAGTCA
**
2901 GTGGCACCCTTTTTAAGCCCACGCAAGTCA
1 GTGGCACCCTTTCAAAGCCCA--CAAGTCA
** *
2931 GTAACACTCTTTTCAAAGCCCACA
1 GTGGCAC-CCTTTCAAAGCCCACA
2955 TGTGTCAGTG
Statistics
Matches: 2532, Mismatches: 268, Indels: 127
0.87 0.09 0.04
Matches are distributed among these distances:
27 123 0.05
28 1386 0.55
29 474 0.19
30 271 0.11
31 195 0.08
32 78 0.03
33 5 0.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.21
Consensus pattern (28 bp):
GTGGCACCCTTTCAAAGCCCACAAGTCA
Found at i:913 original size:257 final size:254
Alignment explanation
Indices: 53--3005 Score: 3598
Period size: 257 Copynumber: 11.4 Consensus size: 254
43 ATTCTTTAGT
* * * ** * * * ** *
53 CCACAACTTTGTGGCACCCTTTTAAAATCCACAACTCCGTGGCAC-CCTTTTAAAATCCACAACT
1 CCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGT
* * ** * * * *
117 CCGTGGTACTCTTTT-AAAATCCACAACTCTGTGGCACCCATTTCAAAGCCCACACAAGTCGGTG
66 CAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAG-CC-CACAAGTCAGTG
* *
181 GCAACCCATTTCAAAACCCACACAAGTC-GATGGCAACCCATTTCAAAGCCCACACAAGTCGGTG
128 GC-ACCC-TTTC-AAAGCC-CACAAGTCAG-TGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTG
* *
245 GCAACACTTTTCAAAGCCCACACAAGTCGGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACC
184 GC-AC-CCTTTCAAAG-CC-CACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA-C
310 CCTTTCAAAGC
244 CCTTTCAAAGC
* * * *
321 CTACGCAAGTTAGTGGCACCCTTTTAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAA
1 C--CACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAA
*
386 GTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTTCAAAGCCCACGCAAGTCAG
64 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACC-TTTTCAAAGCCCA--CAAGTCAG
* * * * * *
450 TGGCACCCTTTCGAAGCCCACAAGTCAGTGGCACCATTGCGAAGCCCACAATTCAGTGGCACTCT
126 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
515 TTCAAAACCCACAAGTCAGTGGCACCCTTTTAGAGCCCACATAAGTCAGTGGCACTCCTTTCAAA
191 TTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCAC--AAGTCAGTGGCAC-CCTTTCAAA
580 GC
253 GC
* *
582 CCACAAGTTAGTGGCAATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAG
1 CCACAAGTTAGTGGC-ACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAG
* * *
647 TCGGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGTCCACAAGTTAGTGGC
65 TCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGC
* * * * * * *
712 ACCCTTTCAGAGCCAACAACTCAGTGGCACCCTTTCGAAGCCCACAAGTCAGTGGCACCATTGCG
130 ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
* * *
777 AAGCCCACAATTCAGTGGCACTCTTTCAAAGCCCAAAAGTCAGTGGCACCCTTTTAAAGCC
195 AAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-C
* *
838 CACACAAGTTAGTGGCACTCCTTTCAAAGCCTACAAGTCAGTGGCAATCCTTTCAAAGCCCACAA
1 C-CACAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAA
* * *
903 GTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTC-AAGCCCACGAGTCAATGG
64 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGG
* * * *
966 TACCTTTTCAAAGCCCACGAGTCAGTGGCA-CCTTTCAAAGCCCACGAGTCAGTGGCA-CCTTTC
129 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
* *
1029 AAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGACACCCTTTCAAAGC
194 AAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
*
1091 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGT
1 CCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGT
* * *
1156 CAGTGGCACTCCTTTCAAAGCCCACTAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGC
66 CAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGC
* *
1221 ACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
130 AC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
* * * * * *
1286 AGAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCACAAGTCAGTGGCACCATTGCGAAGC
194 AAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* *
1347 CCACAA-TTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTTAAAGCCCACACA
1 CCACAAGTT-AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG-CC-CACA
* *
1410 AGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCATTCC-TTTCAAAGCTCACAAGTCAG
63 AGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA--CCTTTTCAAAGCCCACAAGTCAG
* * *
1474 TGGCACTCTTTTCAAAGGCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
126 TGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
1539 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAGAGCCCACAAGTCAGTGGCACCCTTTCGAAGC
190 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * *
1604 CCACAAGTCAGTGGCACCATTGCGAAGCCCACAATTCAGTGGCACT-CTTTCAAAGCCCACAAGT
1 CCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGT
* * *
1668 CAGTGGCACCCTTTT-AAAGCCCACACAAGTTAGTGGCACCCTTTT-AAAGCCCACAAGTTAGTG
66 CAGTGGCACTCTTTTCAAAG-CC-CACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTG
* * * *
1731 GCACCCTTTCAGAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCACAAGTCAGTGGCACCATTG
128 GCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTT
* * * *
1796 CGAAGCCCATAATTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCC
193 CAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-C
* * *
1859 CACACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCTCACAA
1 C-CACAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAA
* *
1924 GTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGG
64 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGG
* *
1989 CACCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCGAAGCCCACAAGTCAGTGGCACCCTTTC
129 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
* * * * *
2054 GAAGCCCACAAGTCAGTGGCAC-CATTGCGAAGCCCACAATTCAGTGGCACTCTTTCAAAGC
194 AAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * *
2115 CCACAAGTCAGTGGCACCCTTTTAAAGCCCACACAAGTTAGTGGCACTCCTTTTAAAGCTCACGC
1 CCACAAGTTAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGCACTCCTTTCAAAGC-C-CAC
* **
2180 AAGTCAGTGGTAC-CTTTTCAAAGCCCATGAGTCAGTGGCA-CTCTTTCAAAGCCCACAAGTCAG
62 AAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCT-TTTCAAAGCCCACAAGTCAG
* * *
2243 TGGCATCCTTTCAAAGCCCACGAGTTAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCACT
126 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGCAC-
2308 CCTTTCAAAGCCCACGCAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
188 CCTTTCAAAGCCCA--CAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
2372 AAAGC
250 AAAGC
* * *
2377 CCACAAGTTAGTGGCACCCTTTCAGAGCCCACAAGTTAGTGGCAC-CCTTTCGAAGCCCACAAGT
1 CCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGT
* * * * *
2441 CAGTGGCAC-CATTGCGAAGCCCACAATTCAATGGCA-CTCTTTCAAAGCCCACAAGTCAGTGGC
66 CAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCT-TTTCAAAGCCCACAAGTCAGTGGC
* * * * * *
2504 ACCCTTTTAAAGCCCACACAAGTTAGTGGCACTCCTTTTAAAGCTCACGCAAGTCAGTGGTACCT
130 ACCCTTTCAAAG-CC-CACAAGTCAGTGGCAC-CCTTTCAAAGC-C-CACAAGTCAGTGGCACCC
* * *
2569 TTTTAAAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
190 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
*
2634 CCACGAGTTAGTGGCACCCTTTCAAAGTCCACACAAGTCAGTGGCACTCCTTTCAAAGCCCACGC
1 CCACAAGTTAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGCACTCCTTTCAAAGCCCA--C
* *
2699 AAGTCAGTGGCAC-CTTTTCAAAGCCCACGAGTCAGTGGCACTTTTTCAAAGCCCACAAGTCAGT
62 AAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGT
* * * *
2763 GGCACCCTTTC-AAGCCCACGAGTCAGTGGTACCTTTTCAAAGCCCACGAGTCAGTGGCA-CCTT
127 GGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTT
* *
2826 TCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACGAGTCAGTGGCATCCTTTCAAAGC
192 TCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* ** ** *
2889 CCACGCAAGTCAGTGGCACCCTTTTTAAGCCCACGCAAGTCAGTAACACTCTTTTCAAAGCCCAC
1 CCA--CAAGTTAGTGGCACCCTTTCAAAGCCCA--CAAGTCAGTGGCACTCCTTTCAAAGCCCAC
* * *
2954 ATGTGTCAGTGGCAACTTTTTTCAAAGCCTACACAAG-CTAGTGGCACATTTT
62 A--AGTCAGTGGC-ACTCTTTTCAAAGCC--CACAAGTC-AGTGGCACCTTTT
3006 TTTTTAAAAA
Statistics
Matches: 2362, Mismatches: 251, Indels: 151
0.85 0.09 0.05
Matches are distributed among these distances:
251 57 0.02
252 40 0.02
253 33 0.01
254 195 0.08
255 216 0.09
256 231 0.10
257 776 0.33
258 163 0.07
259 137 0.06
260 140 0.06
261 81 0.03
262 140 0.06
263 13 0.01
264 2 0.00
265 6 0.00
266 3 0.00
267 12 0.01
268 6 0.00
269 6 0.00
270 48 0.02
271 57 0.02
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (254 bp):
CCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGT
CAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
AGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
Found at i:4277 original size:58 final size:57
Alignment explanation
Indices: 4126--4391 Score: 304
Period size: 58 Copynumber: 4.6 Consensus size: 57
4116 CATTCATCAC
* * ** *
4126 CCTTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCAGTGGCATT
1 CCTTTAAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCA-A
** **
4184 TTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAA
1 CCTTT-AAAAGCCCACAAGTCAGTGGCATCCTTTTC-AAAGCCCACAAGTCAGTGGCAA
* *
4243 CCTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAA
1 CCTTTAAAAGCCCACAAGTCAGTGGCATCCTTTTC-AAAGCCCACAAGTCAGTGGCAA
* * *
4301 CCTTTAAAAGCCCACAAGTCAGTGGCAACC--TTCAAAGCCCACAAATCAGTGGCAC
1 CCTTTAAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCAA
** *
4356 CCTTTTCCGAAGCCCACAAGTCGGTGGCA-CCTTTTC
1 CC-TTT-AAAAGCCCACAAGTCAGTGGCATCCTTTTC
4392 CATCTTTAAG
Statistics
Matches: 183, Mismatches: 19, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
55 22 0.12
56 8 0.04
57 19 0.10
58 82 0.45
59 31 0.17
60 21 0.11
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (57 bp):
CCTTTAAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCAA
Found at i:4385 original size:30 final size:30
Alignment explanation
Indices: 4128--4391 Score: 314
Period size: 30 Copynumber: 9.1 Consensus size: 30
4118 TTCATCACCC
* ***
4128 TTCAAAAGTCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
***
4158 TTC-AAAGCCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
*
4187 TTCAAAAGCCCACAAGTCAGTGGCATA-TTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTT
4217 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
* *
4246 TT-AAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
4275 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
4304 TT-AAAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
* *
4331 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
** *
4360 TTCCGAAGCCCACAAGTCGGTGGC-ACCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
4389 TTC
1 TTC
4392 CATCTTTAAG
Statistics
Matches: 212, Mismatches: 13, Indels: 19
0.87 0.05 0.08
Matches are distributed among these distances:
27 24 0.11
28 48 0.23
29 48 0.23
30 92 0.43
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTT
Found at i:4437 original size:52 final size:52
Alignment explanation
Indices: 4380--4591 Score: 199
Period size: 52 Copynumber: 4.2 Consensus size: 52
4370 CACAAGTCGG
*
4380 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* *
4432 TGGCA-------C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* *
4475 TGGCACCTTTTTCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* * * * * * * * *
4527 TGACATCCTTTTTCTCAGCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATAT
1 TGGCA-CC-TTTTC-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
*
4582 TGGCATCTTT
1 TGGCACCTTT
4592 ATCACTTTTC
Statistics
Matches: 129, Mismatches: 19, Indels: 23
0.75 0.11 0.13
Matches are distributed among these distances:
43 39 0.30
45 1 0.01
50 1 0.01
52 43 0.33
53 5 0.04
54 5 0.04
55 35 0.27
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (52 bp):
TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
Found at i:4456 original size:43 final size:43
Alignment explanation
Indices: 4395--4484 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
4385 CCTTTTCCAT
*
4395 CTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
* *
4438 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
4481 CTTT
1 CTTT
4485 TTCATCTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
Found at i:5438 original size:33 final size:33
Alignment explanation
Indices: 5401--5468 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
5391 TTTCAACGAT
5401 ATGTATCGATACATAAAGTGTTGTATCGATACA
1 ATGTATCGATACATAAAGTGTTGTATCGATACA
*** *
5434 ATGTATCGATACATATTTTTTTGTATCGATACA
1 ATGTATCGATACATAAAGTGTTGTATCGATACA
5467 AT
1 AT
5469 TTAAGCTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
ATGTATCGATACATAAAGTGTTGTATCGATACA
Found at i:5440 original size:13 final size:13
Alignment explanation
Indices: 5422--5446 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5412 CATAAAGTGT
5422 TGTATCGATACAA
1 TGTATCGATACAA
5435 TGTATCGATACA
1 TGTATCGATACA
5447 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5527 original size:13 final size:13
Alignment explanation
Indices: 5509--5533 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5499 ATCACTTAAA
5509 TGTATCGATACAT
1 TGTATCGATACAT
5522 TGTATCGATACA
1 TGTATCGATACA
5534 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5586 original size:52 final size:51
Alignment explanation
Indices: 5522--5670 Score: 244
Period size: 52 Copynumber: 2.9 Consensus size: 51
5512 ATCGATACAT
**
5522 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
5574 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT-CAATGTATCGATACATGCAGGCAAATTTGCCCAGA
5626 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTA-TCAATGTATCGATACATGCAGGCAAATTT
5671 TCATATTTCG
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
51 2 0.02
52 88 0.97
53 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (51 bp):
TGTATCGATACACTATCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:8172 original size:1 final size:1
Alignment explanation
Indices: 8166--8277 Score: 89
Period size: 1 Copynumber: 112.0 Consensus size: 1
8156 CGTCCTCCAC
* * * * * * ** *
8166 AAAAAAAAAAAACAAAACAAAACAAAACAAAAAAAAAACAAAACAAAAAAAAAGCAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
8231 AAAAACAAAGAAAAAAACACAAAAAAAAAACAAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8278 GGGTCTGGAT
Statistics
Matches: 82, Mismatches: 29, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 82 1.00
ACGTcount: A:0.87, C:0.12, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:8192 original size:21 final size:21
Alignment explanation
Indices: 8172--8277 Score: 124
Period size: 22 Copynumber: 4.8 Consensus size: 21
8162 CCACAAAAAA
*
8172 AAAAAACAAAACAAAACAAAAC
1 AAAAAA-AAAACAAAAAAAAAC
8194 AAAAAAAAAACAAAACAAAAA-
1 AAAAAAAAAACAAAA-AAAAAC
*
8215 AAAAGCAAAAACAAAAAAAAAC
1 AAAA-AAAAAACAAAAAAAAAC
*
8237 AAAGAAAAAAACACAAAAAAAAA
1 AAA-AAAAAAACA-AAAAAAAAC
8260 ACAAAAAAAAACAAAAAA
1 A-AAAAAAAAACAAAAAA
8278 GGGTCTGGAT
Statistics
Matches: 74, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
21 18 0.24
22 35 0.47
23 19 0.26
24 2 0.03
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAACAAAAAAAAAC
Found at i:8276 original size:10 final size:10
Alignment explanation
Indices: 8169--8277 Score: 123
Period size: 10 Copynumber: 10.6 Consensus size: 10
8159 CCTCCACAAA
8169 AAAAAAAAAC
1 AAAAAAAAAC
*
8179 AAAACAAAAC
1 AAAAAAAAAC
8189 AAAACAAAAA-
1 AAAA-AAAAAC
8199 AAAAACAAAAC
1 AAAAA-AAAAC
8210 AAAAAAAAAGC
1 AAAAAAAAA-C
8221 AAAAACAAAA-
1 AAAAA-AAAAC
* *
8231 AAAAACAAAG
1 AAAAAAAAAC
*
8241 AAAAAAACAC
1 AAAAAAAAAC
8251 AAAAAAAAAAC
1 -AAAAAAAAAC
8262 AAAAAAAAAC
1 AAAAAAAAAC
8272 AAAAAA
1 AAAAAA
8278 GGGTCTGGAT
Statistics
Matches: 85, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
9 4 0.05
10 53 0.62
11 24 0.28
12 4 0.05
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:9860 original size:58 final size:59
Alignment explanation
Indices: 9711--10092 Score: 458
Period size: 58 Copynumber: 6.6 Consensus size: 59
9701 TTCATCACCC
* ** ***
9711 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTC-AAAGCCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCT
**
9770 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
1 TTCAAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
* * **
9829 TT-AAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCT
* * *
9888 TTCAAAAGCCCACAAGTCAGTGGCAACC-TTT-AAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAAGCCCACAAGTCAGTGGCAACC-T
**
9946 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
1 TTCAAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
* * *
10005 TT-AAAAGCCCACAAGTCAGTGGCAACC--TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAAGCCCACAAGTCAGTGGCAACC-T
** *
10061 TTCCGAAGCCCACAAGTCGGTGGCA-CCTTTTC
1 TTCAAAAGCCCACAAGTCAGTGGCATCCTTTTC
10093 CATCTTTAAG
Statistics
Matches: 283, Mismatches: 30, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
55 22 0.08
56 8 0.03
57 19 0.07
58 120 0.42
59 47 0.17
60 67 0.24
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (59 bp):
TTCAAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
Found at i:9861 original size:88 final size:88
Alignment explanation
Indices: 9711--10090 Score: 561
Period size: 88 Copynumber: 4.4 Consensus size: 88
9701 TTCATCACCC
* *** * ***
9711 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTTTCAAA
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
9776 AGCCCACAAGTCAGTGGCATATTT
65 AGCCCACAAGTCAGTGGCATATTT
*
9800 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAA
9865 GCCCACAAGTCAGTGGCATATTT
66 GCCCACAAGTCAGTGGCATATTT
*
9888 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAA
9953 GCCCACAAGTCAGTGGCATATTT
66 GCCCACAAGTCAGTGGCATATTT
*
9976 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAACC--TTC-AAA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAA
* ***
10038 GCCCACAAATCAGTGGCACCCTT
66 GCCCACAAGTCAGTGGCATATTT
** *
10061 TTCCGAAGCCCACAAGTCGGTGGC-ACCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTT
10091 TCCATCTTTA
Statistics
Matches: 273, Mismatches: 18, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
84 6 0.02
85 43 0.16
86 3 0.01
88 197 0.72
89 24 0.09
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (88 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAA
GCCCACAAGTCAGTGGCATATTT
Found at i:10086 original size:30 final size:30
Alignment explanation
Indices: 9711--10092 Score: 468
Period size: 30 Copynumber: 13.1 Consensus size: 30
9701 TTCATCACCC
* ***
9711 TTCAAAAGTCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
***
9741 TTC-AAAGCCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
*
9770 TTCAAAAGCCCACAAGTCAGTGGCATA-TTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTT
9800 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
* *
9829 TT-AAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
*
9858 TTCAAAAGCCCACAAGTCAGTGGCATA-TTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTT
9888 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
* *
9917 TT-AAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
*
9946 TTCAAAAGCCCACAAGTCAGTGGCATA-TTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTT
9976 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
10005 TT-AAAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
* *
10032 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
** *
10061 TTCCGAAGCCCACAAGTCGGTGGC-ACCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
10090 TTC
1 TTC
10093 CATCTTTAAG
Statistics
Matches: 316, Mismatches: 21, Indels: 31
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.08
28 71 0.22
29 56 0.18
30 165 0.52
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTT
Found at i:10120 original size:115 final size:115
Alignment explanation
Indices: 9711--10091 Score: 446
Period size: 118 Copynumber: 3.3 Consensus size: 115
9701 TTCATCACCC
* ** ***
9711 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTC-AAAGCCCACAAGTCAGTGGCATTTTTTTCAA
1 TTCAAAAGCCCACAAGTCAGTGGCACATTTTTCAAAAGCCCACAAGTCAGTGG-A-ACCTTT-AA
** * *
9775 AAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACC-T
63 AAGCCCACAAGTCAGTGGCA-ACCTTT-AAAAGCCCACAAATCAGTGGCACCCTT
* ** **
9829 TT-AAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAA
1 TTCAAAAGCCCACAAGTCAGTGGCACATTTTTCAAAAGCCCACAAGTCAGTGG-A-ACCTTT-AA
* *
9893 AAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTT
63 AAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAATCAGTGGCACCCTT
*
9946 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAA
1 TTCAAAAGCCCACAAGTCAGTGGCACATTTTTCAAAAGCCCACAAGTCAGTGG-AACCTTTAAAA
*
10011 GCCCACAAGTCAGTGGCAACC-TTCAAAGCCCACAAATCAGTGGCACCCTT
65 GCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAATCAGTGGCACCCTT
** * *
10061 TTCCGAAGCCCACAAGTCGGTGGCACCTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACATTTT
10092 CCATCTTTAA
Statistics
Matches: 236, Mismatches: 24, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
115 52 0.22
116 48 0.20
117 36 0.15
118 100 0.42
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (115 bp):
TTCAAAAGCCCACAAGTCAGTGGCACATTTTTCAAAAGCCCACAAGTCAGTGGAACCTTTAAAAG
CCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAATCAGTGGCACCCTT
Found at i:10138 original size:52 final size:52
Alignment explanation
Indices: 10081--10292 Score: 199
Period size: 52 Copynumber: 4.2 Consensus size: 52
10071 CACAAGTCGG
*
10081 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* *
10133 TGGCA-------C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* *
10176 TGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGTACAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* * * * * * * * *
10228 TGACATCCTTTTTCTCAGCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATAT
1 TGGCA-CC-TTTTC-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
*
10283 TGGCATCTTT
1 TGGCACCTTT
10293 ATCACTTTTC
Statistics
Matches: 128, Mismatches: 20, Indels: 23
0.75 0.12 0.13
Matches are distributed among these distances:
43 39 0.30
45 1 0.01
50 1 0.01
52 42 0.33
53 5 0.04
54 6 0.05
55 34 0.27
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (52 bp):
TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
Found at i:10157 original size:43 final size:43
Alignment explanation
Indices: 10096--10185 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
10086 CCTTTTCCAT
*
10096 CTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
* *
10139 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
10182 CTTT
1 CTTT
10186 TCCATCTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
Found at i:11145 original size:20 final size:20
Alignment explanation
Indices: 11101--11158 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
11091 ATTTCAACGA
***
11101 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATATTTT
*
11121 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATATTTT
11141 TTTGTATCGATACA-ATTT
1 TTTGTATCGATACATATTT
11159 CAGCTACTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (20 bp):
TTTGTATCGATACATATTTT
Found at i:15310 original size:22 final size:22
Alignment explanation
Indices: 15276--15329 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
15266 AGCCTTTGAC
15276 CATGCA-TTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
15297 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
15319 CATGCATTTTT
1 CATGCATTTTT
15330 ACATGTCCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.19, C:0.11, G:0.09, T:0.61
Consensus pattern (22 bp):
CATGCATTTTTTTATTATGTTT
Found at i:19355 original size:11 final size:12
Alignment explanation
Indices: 19334--19362 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
19324 TATCTTTTCT
19334 TTTCATTTCCTC
1 TTTCATTTCCTC
19346 TTTC-TTTCCTC
1 TTTCATTTCCTC
19357 TTTCAT
1 TTTCAT
19363 CACGTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.07, C:0.31, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTCATTTCCTC
Found at i:22606 original size:11 final size:11
Alignment explanation
Indices: 22581--22660 Score: 85
Period size: 11 Copynumber: 7.4 Consensus size: 11
22571 ATAGATTTTA
*
22581 ATATTTTTA-T
1 ATATTTATATT
22591 ATATTTATATT
1 ATATTTATATT
22602 ATATTTATATT
1 ATATTTATATT
*
22613 ATTTTTAATATT
1 ATATTT-ATATT
*
22625 ATTTTTATATT
1 ATATTTATATT
22636 ATATTT-TAATT
1 ATATTTAT-ATT
*
22647 AT-TTTTTATT
1 ATATTTATATT
22657 ATAT
1 ATAT
22661 AATCATATTA
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
10 17 0.27
11 34 0.55
12 11 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
ATATTTATATT
Found at i:22625 original size:23 final size:23
Alignment explanation
Indices: 22581--22645 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
22571 ATAGATTTTA
* *
22581 ATATTTTTA-TATATTT-ATATT
1 ATATTTATATTATTTTTAATATT
22602 ATATTTATATTATTTTTAATATT
1 ATATTTATATTATTTTTAATATT
*
22625 ATTTTTATATTATATTTTAAT
1 ATATTTATATTAT-TTTTAAT
22646 TATTTTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.21
22 6 0.16
23 17 0.45
24 7 0.18
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
ATATTTATATTATTTTTAATATT
Found at i:22661 original size:23 final size:24
Alignment explanation
Indices: 22587--22726 Score: 73
Period size: 23 Copynumber: 6.0 Consensus size: 24
22577 TTTAATATTT
*
22587 TTATATA-TTTATATTATATTTATA
1 TTATATATTTTATATTAT-TTTTTA
*
22611 TTAT-T-TTTAATATTA-TTTTTA
1 TTATATATTTTATATTATTTTTTA
22632 -TATTATATTTTA-ATTATTTTTTA
1 TTA-TATATTTTATATTATTTTTTA
* * ***
22655 TTATATA-ATCATATTATATCTAAAA
1 TTATATATTTTATATTAT-T-TTTTA
*
22680 TTATCATATTTTTATATCA-TTTTTA
1 TTAT-ATA-TTTTATATTATTTTTTA
* *
22705 TAATAAATTTTA-ATTATTTTTT
1 TTATATATTTTATATTATTTTTT
22727 CATATAATGT
Statistics
Matches: 86, Mismatches: 17, Indels: 27
0.66 0.13 0.21
Matches are distributed among these distances:
20 2 0.02
21 6 0.07
22 10 0.12
23 38 0.44
24 9 0.10
25 11 0.13
26 4 0.05
28 6 0.07
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (24 bp):
TTATATATTTTATATTATTTTTTA
Found at i:22669 original size:34 final size:36
Alignment explanation
Indices: 22587--22751 Score: 114
Period size: 34 Copynumber: 4.6 Consensus size: 36
22577 TTTAATATTT
22587 TTATATATTTATATTATA-TTTATATTATTTTTAATA
1 TTATATATTTATATTATATTTTATATTATTTTT-ATA
22623 TTAT-T-TTTATATTATATTTTA-ATTATTTTT-TA
1 TTATATATTTATATTATATTTTATATTATTTTTATA
* *
22655 TTATATAATCATATTATATCTAAAATTATCA-TATTTTTATA
1 TTATATATTTATATTATAT-T----TTAT-ATTATTTTTATA
* * *
22696 TCAT-T-TTTATAATAAATTTTA-ATTATTTTTTCATA
1 TTATATATTTATATTATATTTTATATTA-TTTTT-ATA
* * *
22731 TAATGTAATTATATTATATTT
1 TTATATATTTATATTATATTT
22752 AAAGTTATTA
Statistics
Matches: 102, Mismatches: 11, Indels: 31
0.71 0.08 0.22
Matches are distributed among these distances:
32 7 0.07
33 3 0.03
34 38 0.37
35 12 0.12
36 5 0.05
37 11 0.11
38 1 0.01
39 11 0.11
40 8 0.08
41 6 0.06
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.61
Consensus pattern (36 bp):
TTATATATTTATATTATATTTTATATTATTTTTATA
Found at i:22716 original size:73 final size:75
Alignment explanation
Indices: 22612--22785 Score: 205
Period size: 76 Copynumber: 2.3 Consensus size: 75
22602 ATATTTATAT
* *
22612 TATTTTTAATATTATTTTTATATTATATTTTAATTATTTTTT-AT-T-ATATAATCATATTATAT
1 TATTTTT-ATA-TATTTTTATAATAAATTTTAATTATTTTTTCATATAATATAATCATATTATAT
22674 CTAAAATTATCA
64 CTAAAATTATCA
* * *
22686 TATTTTTATATCATTTTTATAATAAATTTTAATTATTTTTTCATATAATGTAATTATATTATATT
1 TATTTTTATAT-ATTTTTATAATAAATTTTAATTATTTTTTCATATAATATAATCATATTATATC
* *
22751 TAAAGTTATTA
65 TAAAATTATCA
*
22762 AATTTATT-TAT-TTTTTATAATAAA
1 TATTT-TTATATATTTTTATAATAAA
22786 ATAATTTAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
72 1 0.01
73 30 0.34
74 22 0.25
75 1 0.01
76 31 0.36
77 2 0.02
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (75 bp):
TATTTTTATATATTTTTATAATAAATTTTAATTATTTTTTCATATAATATAATCATATTATATCT
AAAATTATCA
Found at i:23459 original size:15 final size:16
Alignment explanation
Indices: 23439--23472 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
23429 ATATATAATT
*
23439 TATTAAAAATG-AATA
1 TATTAAAAACGAAATA
23454 TATTAAAAACGAAATA
1 TATTAAAAACGAAATA
23470 TAT
1 TAT
23473 ATTAATATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (16 bp):
TATTAAAAACGAAATA
Found at i:25630 original size:19 final size:19
Alignment explanation
Indices: 25606--25645 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
25596 ACATAGAATT
25606 AGAATAATATAAATATAAA
1 AGAATAATATAAATATAAA
* *
25625 AGAATAGTATAAATGTAAA
1 AGAATAATATAAATATAAA
25644 AG
1 AG
25646 CAGTCAAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (19 bp):
AGAATAATATAAATATAAA
Found at i:26467 original size:17 final size:17
Alignment explanation
Indices: 26447--26497 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
26437 ATTAAAAATA
26447 ATTAAAATTATATTTAT
1 ATTAAAATTATATTTAT
* *
26464 ATT-AAATAATATAATAT
1 ATTAAAATTATAT-TTAT
* *
26481 ATTAAATTTATACTTAT
1 ATTAAAATTATATTTAT
26498 GTCAAAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
16 8 0.31
17 12 0.46
18 6 0.23
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTAAAATTATATTTAT
Found at i:26484 original size:28 final size:25
Alignment explanation
Indices: 26442--26492 Score: 66
Period size: 28 Copynumber: 1.9 Consensus size: 25
26432 AAATAATTAA
*
26442 AAATAATTAAAATTATATTTATATT
1 AAATAATTAAAATTAAATTTATATT
26467 AAATAATATAATATATTAAATTTATA
1 AAATAAT-TAA-A-ATTAAATTTATA
26493 CTTATGTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 3 0.14
27 1 0.05
28 11 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
AAATAATTAAAATTAAATTTATATT
Found at i:26821 original size:2 final size:2
Alignment explanation
Indices: 26814--26855 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
26804 ACTTGCTTTA
26814 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26856 TCTCCAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32070 original size:12 final size:12
Alignment explanation
Indices: 32054--32104 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
32044 TGATGAAAAA
*
32054 GATGAATATGAT
1 GATGAAGATGAT
*
32066 TATGAAGATGAT
1 GATGAAGATGAT
*
32078 GATGATGATGAT
1 GATGAAGATGAT
* *
32090 GACGAAAATGAT
1 GATGAAGATGAT
32102 GAT
1 GAT
32105 CATTTATTTG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.41, C:0.02, G:0.27, T:0.29
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:34127 original size:9 final size:9
Alignment explanation
Indices: 34097--34131 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
34087 TGATGTTCAA
34097 GATGATGAC
1 GATGATGAC
*
34106 GACGATGAC
1 GATGATGAC
*
34115 GATGATGAT
1 GATGATGAC
34124 GATGATGA
1 GATGATGA
34132 GGAGGTATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.34, C:0.09, G:0.34, T:0.23
Consensus pattern (9 bp):
GATGATGAC
Found at i:34186 original size:81 final size:81
Alignment explanation
Indices: 34051--34209 Score: 318
Period size: 81 Copynumber: 2.0 Consensus size: 81
34041 ACCCACCATC
34051 GGAGGTATCACTAGTAGCTCGTGGACAGCTTGATGATGATGTTCAAGATGATGACGACGATGACG
1 GGAGGTATCACTAGTAGCTCGTGGACAGCTTGATGATGATGTTCAAGATGATGACGACGATGACG
34116 ATGATGATGATGATGA
66 ATGATGATGATGATGA
34132 GGAGGTATCACTAGTAGCTCGTGGACAGCTTGATGATGATGTTCAAGATGATGACGACGATGACG
1 GGAGGTATCACTAGTAGCTCGTGGACAGCTTGATGATGATGTTCAAGATGATGACGACGATGACG
34197 ATGATGATGATGA
66 ATGATGATGATGA
34210 AGCTTAATTT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.26
Consensus pattern (81 bp):
GGAGGTATCACTAGTAGCTCGTGGACAGCTTGATGATGATGTTCAAGATGATGACGACGATGACG
ATGATGATGATGATGA
Found at i:34707 original size:13 final size:13
Alignment explanation
Indices: 34691--34729 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
34681 ATAATTTCAA
*
34691 TTTGTAATAGAAT
1 TTTGTAACAGAAT
34704 TTTGTAACAGAAT
1 TTTGTAACAGAAT
34717 TTTGTAACAGAAT
1 TTTGTAACAGAAT
34730 AGTGACGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (13 bp):
TTTGTAACAGAAT
Found at i:38066 original size:24 final size:26
Alignment explanation
Indices: 38037--38095 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 26
38027 ATGTTTAAAA
* *
38037 ATAAAAATAATTTTTTAAAT-TTAAT
1 ATAAAAATAATTATATAAATATTAAT
38062 -TAAAAAT-A-TATATAAATATTAAT
1 ATAAAAATAATTATATAAATATTAAT
38085 ATAAAAATAAT
1 ATAAAAATAAT
38096 ACTTAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
22 7 0.25
23 6 0.21
24 14 0.50
25 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
ATAAAAATAATTATATAAATATTAAT
Found at i:38304 original size:25 final size:28
Alignment explanation
Indices: 38276--38329 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
38266 TATTACGTAA
38276 ATTTTT-TATTT-T-TTAAAAAATATTT
1 ATTTTTATATTTATATTAAAAAATATTT
*
38301 ATTTTTAATATTTATATTTAAAAATATTT
1 ATTTTT-ATATTTATATTAAAAAATATTT
38330 GAATATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 6 0.25
27 5 0.21
28 1 0.04
29 12 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
ATTTTTATATTTATATTAAAAAATATTT
Found at i:41164 original size:2 final size:2
Alignment explanation
Indices: 41157--41193 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
41147 GATCCTAAGT
41157 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
41194 TACTGAAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:43285 original size:21 final size:22
Alignment explanation
Indices: 43240--43290 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
43230 TTTTAAAAAA
43240 ATTAATTATAAAAATATATAAAT
1 ATTAA-TATAAAAATATATAAAT
**
43263 ATTAATATAAAAATA-ATTTAT
1 ATTAATATAAAAATATATAAAT
43284 ATTAATA
1 ATTAATA
43291 ATTTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 11 0.42
22 10 0.38
23 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTAATATAAAAATATATAAAT
Found at i:45823 original size:20 final size:19
Alignment explanation
Indices: 45790--45843 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
45780 TTTATAGCTT
* *
45790 TTTTAATTAGATTTATCAA
1 TTTTAATTAAATTTATAAA
*
45809 TTTTAATTTAAATTTAAAAA
1 TTTTAA-TTAAATTTATAAA
45829 TTTTAA-TAAATTTAT
1 TTTTAATTAAATTTAT
45844 TTGAATTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 8 0.27
19 6 0.20
20 16 0.53
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTTAATTAAATTTATAAA
Found at i:47144 original size:27 final size:25
Alignment explanation
Indices: 47114--47206 Score: 72
Period size: 27 Copynumber: 3.7 Consensus size: 25
47104 ATGAATTATT
47114 AATATATTAAAATATATATTAATGTAA
1 AATATATT-AAATATATATTAAT-TAA
*
47141 AATA-AGTTAAATA-ACA-TAA-TAA
1 AATATA-TTAAATATATATTAATTAA
*
47163 AATATA-TAAATATAATATAAATATATA
1 AATATATTAAATAT-ATATTAAT-TA-A
47190 AAT-TATTAAATATATAT
1 AATATATTAAATATATAT
47207 ATATATATAT
Statistics
Matches: 54, Mismatches: 3, Indels: 19
0.71 0.04 0.25
Matches are distributed among these distances:
21 6 0.11
22 7 0.13
23 3 0.06
24 5 0.09
25 2 0.04
26 14 0.26
27 17 0.31
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (25 bp):
AATATATTAAATATATATTAATTAA
Found at i:47174 original size:21 final size:19
Alignment explanation
Indices: 47156--47217 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
47146 GTTAAATAAC
47156 ATAATA-AAATATATAAAT
1 ATAATATAAATATATAAAT
47174 ATAATATAAATATATAAAT
1 ATAATATAAATATATAAAT
*
47193 -T-AT-TAAATATATATAT
1 ATAATATAAATATATAAAT
47209 ATATATATA
1 ATA-ATATA
47218 TGTGTGTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
16 12 0.32
17 3 0.08
18 7 0.18
19 14 0.37
20 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAATATAAATATATAAAT
Found at i:47188 original size:2 final size:2
Alignment explanation
Indices: 47164--47218 Score: 53
Period size: 2 Copynumber: 29.0 Consensus size: 2
47154 ACATAATAAA
* * * *
47164 AT AT AT AA AT AT A- AT AT AA AT AT AT AA AT -T AT -T AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47203 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
47219 GTGTGTGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:47190 original size:28 final size:28
Alignment explanation
Indices: 47151--47217 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
47141 AATAAGTTAA
47151 ATAACATA-ATAAAATATATAAATATA-AT
1 ATAA-ATATATAAAATAT-TAAATATATAT
*
47179 ATAAATATATAAATTATTAAATATATAT
1 ATAAATATATAAAATATTAAATATATAT
*
47207 ATATATATATA
1 ATAAATATATA
47218 TGTGTGTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 11 0.31
28 24 0.69
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (28 bp):
ATAAATATATAAAATATTAAATATATAT
Found at i:47352 original size:14 final size:14
Alignment explanation
Indices: 47330--47360 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
47320 AAGAGACAAC
47330 TTTTCTTTTCTTTT
1 TTTTCTTTTCTTTT
*
47344 TTTTTTTTTCTTTT
1 TTTTCTTTTCTTTT
47358 TTT
1 TTT
47361 CAATCTGTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTCTTTTCTTTT
Found at i:48400 original size:2 final size:2
Alignment explanation
Indices: 48395--48426 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
48385 AATCAATTAT
48395 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
48427 AAACAGACAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51444 original size:8 final size:8
Alignment explanation
Indices: 51431--51458 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
51421 TTCCTATTAT
51431 ATTTATAA
1 ATTTATAA
51439 ATTTATAA
1 ATTTATAA
51447 ATTTATAA
1 ATTTATAA
51455 ATTT
1 ATTT
51459 TATTTTATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
ATTTATAA
Found at i:51511 original size:11 final size:11
Alignment explanation
Indices: 51486--51546 Score: 70
Period size: 11 Copynumber: 5.5 Consensus size: 11
51476 ATAAATTTTA
*
51486 ATATTTTTA-T
1 ATATTTATATT
51496 ATATTTATATT
1 ATATTTATATT
*
51507 ATATTCATATT
1 ATATTTATATT
*
51518 ATTTTTAATATT
1 ATATTT-ATATT
*
51530 ATTTTTATATT
1 ATATTTATATT
51541 ATATTT
1 ATATTT
51547 TAATTTTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
10 8 0.18
11 25 0.57
12 11 0.25
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (11 bp):
ATATTTATATT
Found at i:51529 original size:23 final size:24
Alignment explanation
Indices: 51492--51550 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
51482 TTTAATATTT
51492 TTATATATTT-ATATTATATTCATA
1 TTATAT-TTTAATATTATATTCATA
* *
51516 TTAT-TTTTAATATTATTTTTATA
1 TTATATTTTAATATTATATTCATA
51539 TTATATTTTAAT
1 TTATATTTTAAT
51551 TTTTTTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 3 0.10
23 17 0.55
24 11 0.35
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (24 bp):
TTATATTTTAATATTATATTCATA
Found at i:51530 original size:12 final size:12
Alignment explanation
Indices: 51513--51550 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
51503 TATTATATTC
51513 ATATTATTTTTA
1 ATATTATTTTTA
51525 ATATTATTTTT-
1 ATATTATTTTTA
51536 ATATTATATTTTA
1 ATATTAT-TTTTA
51549 AT
1 AT
51551 TTTTTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 7 0.29
12 15 0.62
13 2 0.08
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTATTTTTA
Found at i:51665 original size:76 final size:73
Alignment explanation
Indices: 51531--51671 Score: 174
Period size: 76 Copynumber: 1.9 Consensus size: 73
51521 TTTAATATTA
* * * * * *
51531 TTTTTATATTATATTTTAATTTTTTTATATCATATAATGATATTATGCCTAAAGTTATTATATTT
1 TTTTTATAATAAATTTTAATTTTTTTATATCATATAATCATATTATACCTAAAATTATTAAATTT
51596 TCATGTCG
66 TCATGTCG
* **
51604 TTTTTATAATAAATTTTAATTATTTTTTCATATTATATAATCATATTATATTTAAAATTATTAAA
1 TTTTTATAATAAATTTTAA-T-TTTTTT-ATATCATATAATCATATTATACCTAAAATTATTAAA
51669 TTT
63 TTT
51672 ATTTATTTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
73 17 0.30
74 1 0.02
75 6 0.11
76 32 0.57
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.57
Consensus pattern (73 bp):
TTTTTATAATAAATTTTAATTTTTTTATATCATATAATCATATTATACCTAAAATTATTAAATTT
TCATGTCG
Found at i:51708 original size:31 final size:32
Alignment explanation
Indices: 51647--51709 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
51637 TATATAATCA
* * *
51647 TATTATATTTAAAATTATTAAATTTATTTATT
1 TATTATATATAAAATAATTAAAATTATTTATT
51679 TATTATA-ATAAAATAATTTAAAATT-TTTATT
1 TATTATATATAAAATAA-TTAAAATTATTTATT
51710 CCTAATTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 13 0.48
32 14 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
TATTATATATAAAATAATTAAAATTATTTATT
Found at i:53028 original size:9 final size:9
Alignment explanation
Indices: 53011--53071 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
53001 ACTCAAATTT
*
53011 ATATAAAAA
1 ATATTAAAA
53020 ATATT-AAA
1 ATATTAAAA
53028 ATATTAAAAAA
1 ATATT--AAAA
*
53039 TATATTTAAA
1 -ATATTAAAA
*
53049 ATAATAAAA
1 ATATTAAAA
53058 AT-TTAAAA
1 ATATTAAAA
53066 ATATTA
1 ATATTA
53072 TGATAATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
8 15 0.36
9 16 0.38
10 3 0.07
11 3 0.07
12 5 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
ATATTAAAA
Found at i:53042 original size:29 final size:28
Alignment explanation
Indices: 53010--53069 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
53000 TACTCAAATT
*
53010 TATATAAAAAATATTAAAATATTAAAAAA
1 TATATAAAAAATAATAAAA-ATTAAAAAA
** *
53039 TATATTTAAAATAATAAAAATTTAAAAA
1 TATATAAAAAATAATAAAAATTAAAAAA
53067 TAT
1 TAT
53070 TATGATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (28 bp):
TATATAAAAAATAATAAAAATTAAAAAA
Found at i:53043 original size:20 final size:20
Alignment explanation
Indices: 53015--53058 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
53005 AAATTTATAT
*
53015 AAAAAATA-TTAAAATATTA
1 AAAAAATATTTAAAATAATA
53034 AAAAATATATTTAAAATAATA
1 AAAAA-ATATTTAAAATAATA
53055 AAAA
1 AAAA
53059 TTTAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 3 0.14
21 14 0.64
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAAATATTTAAAATAATA
Found at i:53059 original size:20 final size:19
Alignment explanation
Indices: 53013--53059 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
53003 TCAAATTTAT
53013 ATAAAAA-ATATTAAAATA
1 ATAAAAATATATTAAAATA
*
53031 TTAAAAAATATATTTAAAATA
1 AT-AAAAATATA-TTAAAATA
53052 ATAAAAAT
1 ATAAAAAT
53060 TTAAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 1 0.04
19 5 0.21
20 9 0.38
21 9 0.38
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAAAAATATATTAAAATA
Found at i:53710 original size:26 final size:27
Alignment explanation
Indices: 53674--53755 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 27
53664 ATTTACAAAA
*
53674 TTTTAAATATTCATA-TTATA-AT-TATT
1 TTTTATATATT-ATATTTATATATAT-TT
53700 TTTTATATATTATATTTATATATATTT
1 TTTTATATATTATATTTATATATATTT
53727 TTTTGATATATTAATAATTTATATTATAT
1 TTTT-ATATATT-AT-ATTTATA-TATAT
53756 AAATTTTAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
25 3 0.06
26 15 0.31
27 8 0.17
28 8 0.17
29 2 0.04
30 7 0.15
31 5 0.10
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (27 bp):
TTTTATATATTATATTTATATATATTT
Found at i:53717 original size:13 final size:13
Alignment explanation
Indices: 53675--53755 Score: 51
Period size: 13 Copynumber: 6.1 Consensus size: 13
53665 TTTACAAAAT
*
53675 TTTAAATATTCATA
1 TTTATATATT-ATA
*
53689 -TTATA-ATTATTT
1 TTTATATATTA-TA
53701 TTTATATATTATA
1 TTTATATATTATA
* *
53714 TTTATATATATTTT
1 TTTATATAT-TATA
53728 TTTGATATATTAATA
1 TTT-ATATATT-ATA
*
53743 ATT-TATATTATA
1 TTTATATATTATA
53755 T
1 T
53756 AAATTTTAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
11 1 0.02
12 7 0.13
13 25 0.48
14 10 0.19
15 9 0.17
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (13 bp):
TTTATATATTATA
Found at i:53737 original size:15 final size:15
Alignment explanation
Indices: 53680--53755 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 15
53670 AAAATTTTAA
*
53680 ATATTCATATTATAATT
1 ATATTTATA-TAT-ATT
*
53697 AT-TTTTTATATATT
1 ATATTTATATATATT
53711 ATATTTATATATATT
1 ATATTTATATATATT
53726 -T-TTT-TGATATATT
1 ATATTTAT-ATATATT
53739 AATAATTTATATTATAT
1 -AT-ATTTATA-TATAT
53756 AAATTTTAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
12 1 0.02
13 10 0.21
14 6 0.12
15 15 0.31
16 4 0.08
17 6 0.12
18 6 0.12
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (15 bp):
ATATTTATATATATT
Found at i:55323 original size:35 final size:34
Alignment explanation
Indices: 55265--55379 Score: 97
Period size: 34 Copynumber: 3.4 Consensus size: 34
55255 AAGAACATTA
* * *
55265 AATTAAAA-TATATATAAAATAAATAATTAAAAAT
1 AATTAAAATTATATTTATATTAAATAA-TAAAAAT
* *
55299 AATTAAAATTATATTTATATTAAATAATATAATT
1 AATTAAAATTATATTTATATTAAATAATAAAAAT
** * * * * *
55333 TCTTAAATTTATACTTATGTCAAATAATAATAAT
1 AATTAAAATTATATTTATATTAAATAATAAAAAT
55367 AATTCAAAATTAT
1 AATT-AAAATTAT
55380 TAAATTAAAA
Statistics
Matches: 62, Mismatches: 17, Indels: 3
0.76 0.21 0.04
Matches are distributed among these distances:
34 40 0.65
35 22 0.35
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (34 bp):
AATTAAAATTATATTTATATTAAATAATAAAAAT
Found at i:55696 original size:2 final size:2
Alignment explanation
Indices: 55689--55733 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
55679 CAGTTGCTTT
55689 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
55731 TA T
1 TA T
55734 TCTCCATGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:56296 original size:22 final size:23
Alignment explanation
Indices: 56262--56328 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 23
56252 TTTTTTAAAT
*
56262 TTAATTATTAAAAT-ATATAAAAA
1 TTAA-TATAAAAATAATATAAAAA
**
56285 TTAATATAAAAATAATATTTAAA
1 TTAATATAAAAATAATATAAAAA
56308 -TAATATAATAAACTAA-ATAAA
1 TTAATATAA-AAA-TAATATAAA
56329 TTTTTTAGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
22 16 0.44
23 17 0.47
24 3 0.08
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (23 bp):
TTAATATAAAAATAATATAAAAA
Found at i:56300 original size:11 final size:11
Alignment explanation
Indices: 56271--56328 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 11
56261 TTTAATTATT
56271 AAAAT-ATATA
1 AAAATAATATA
56281 AAAATTAATATA
1 AAAA-TAATATA
*
56293 AAAATAATATT
1 AAAATAATATA
*
56304 TAAATAATATA
1 AAAATAATATA
56315 ATAAACTAA-ATA
1 A-AAA-TAATATA
56327 AA
1 AA
56329 TTTTTTAGAC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 4 0.10
11 17 0.43
12 16 0.40
13 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAATAATATA
Found at i:56673 original size:23 final size:23
Alignment explanation
Indices: 56646--56692 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
56636 GGAGTTTGAA
56646 GATATGAAAGCATGTACATGTGG
1 GATATGAAAGCATGTACATGTGG
56669 GATATGAAAGCATGTACATGTGG
1 GATATGAAAGCATGTACATGTGG
56692 G
1 G
56693 TAGGAGCCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.09, G:0.32, T:0.26
Consensus pattern (23 bp):
GATATGAAAGCATGTACATGTGG
Found at i:59914 original size:24 final size:24
Alignment explanation
Indices: 59887--59961 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 24
59877 AAATCCTAAT
59887 AGATAATAAACAAATTTGGATTGG
1 AGATAATAAACAAATTTGGATTGG
* *** *
59911 AGAT-A-AAACTAAAATCCTAAT--
1 AGATAATAAAC-AAATTTGGATTGG
59932 AGATAATAAACAAATTTGGATTGG
1 AGATAATAAACAAATTTGGATTGG
59956 AGATAA
1 AGATAA
59962 ATTAAGTGAA
Statistics
Matches: 36, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
21 4 0.11
22 11 0.31
23 11 0.31
24 10 0.28
ACGTcount: A:0.51, C:0.07, G:0.16, T:0.27
Consensus pattern (24 bp):
AGATAATAAACAAATTTGGATTGG
Found at i:59934 original size:45 final size:45
Alignment explanation
Indices: 59870--59962 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
59860 TTGTTATATC
59870 AAAACTAAAATCCTAATAGATAATAAACAAATTTGGATTGGAGAT
1 AAAACTAAAATCCTAATAGATAATAAACAAATTTGGATTGGAGAT
59915 AAAACTAAAATCCTAATAGATAATAAACAAATTTGGATTGGAGAT
1 AAAACTAAAATCCTAATAGATAATAAACAAATTTGGATTGGAGAT
59960 AAA
1 AAA
59963 TTAAGTGAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.53, C:0.09, G:0.13, T:0.26
Consensus pattern (45 bp):
AAAACTAAAATCCTAATAGATAATAAACAAATTTGGATTGGAGAT
Done.